A computer implemented method of generating a machine learning model for interpreting host phage response data comprising receiving datasets and labels for a host phage response, training a machine learning model and using this model to estimate the efficacy of a test phage in inhibiting growth of a test bacteria.

Methods and compositions for treating and/or preventing a bacterial infection in a subject are provided, in which the subject is administered a fecal sample obtained from a donor subject via fecal microbiota transplantation (FMT). The fecal sample contains bacteriophages that target the bacteria causing the infection. In some embodiments, the fecal sample containing the bacteriophages can be obtained from a donor subject who previously had the same infection but is now cured.

Provided is a modified bacteriophage capable of infecting a target bacterium, which bacteriophage includes an α/β small acid-soluble spore protein (SASP) gene encoding a SASP which is toxic to the target bacterium, wherein the SASP gene is under the control of a constitutive promoter which is foreign to the bacteriophage and the SASP gene.

A method of treating, reducing or preventing bacterial infection in a wound, the method comprising: applying a film on the wound, the film including a biodegradable polymer with bacteriophages dispersed therein, wherein the polymer is a poly (ester amide urea).

Methods of diagnosing and treating patients afflicted with acne, including diagnosing one as having acne if the individual possesses RT4, RT5, RT7, RT8, RT9, or RT10. Methods for treating acne include administering an effective amount of a drug specifically targeting RT4, RT5, RT7, RT8, RT9, or RT10, such as small molecules, antisense molecules, siRNAs, biologics, antibodies, phages, vaccines, or combination thereof.

Methods of expressing an expression product of interest are provided. Accordingly there is provided a method comprising introducing into a cell a polynucleotide comprising an AimR responsive element operatively linked to a nucleic acid sequence encoding the expression product of interest, and contacting said cell with an AimP peptide comprising an amino acid sequence of XXXXGG/A, wherein said AimP peptide is capable of binding said AimR polypeptide and dissociating said AimR polypeptide from said AimR responsive element. Also provided are articles of manufacture, isolated peptides, polynucleotides and nucleic acid constructs.

Disclosed here are phage compositions comprising CRISPR-Cas systems and methods of use thereof. In certain embodiments, disclosed herein is a bacteriophage comprising a nucleic acid sequence encoding a Type I CRISPR-Cas system comprising: (a) a CRISPR array; (b) a Cascade polypeptide; and (c) a Cas3 polypeptide. In some embodiments, the CRISPR array comprises a spacer sequence and at least one repeat sequence. In some embodiments, the at least one repeat sequence is operably linked to the spacer sequence at either its 5′ end or its 3′ end.

Described herein are compositions for treating or preventing a viral infection comprising bacteriophages that bind to the virus and block or inhibit viral entry into a host cell. Bacteriophage libraries may be screened to identify bacteriophages that bind to a virus of interest, and the identified bacteriophages may be used to treat or prevent an infection caused by the virus of interest. Also described herein are methods of treating or preventing a viral infection by administering a bacteriophage composition to a subject in vivo or to a surface in vitro. The bacteriophages in the composition may bind to the virus and inhibit viral entry into a host cell, thereby reducing the infectivity of the virus. Reducing the infectivity of the virus may treat or prevent the viral infection.

Modified bacteriophage, uses thereof, and compositions containing the modified bacteriophage are described. The compositions are useful for human treatment and may treat various conditions, including bacterial infections.

Provided herein are methods and compositions for killing a target bacterium. Also disclosed are engineered bacteriophages.